Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	499,203	A→G	100%	intergenic (+47/‑249)	uhpA → / → PP_0411	two‑component system response regulator UhpA/polyamine ABC transporter ATP‑binding protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	499,203	0	A	G	100.0%	143.9 / NA	43	intergenic (+47/‑249)	uhpA/PP_0411	two‑component system response regulator UhpA/polyamine ABC transporter ATP‑binding protein
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (19/24);  total (19/24)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

CAAGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCAGGCATGCCCGCGAACGGGC‑CTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCTACAACAAA  >  NC_002947/499057‑499347                                                                                                                                                   |                                                                                                                                                  cAAGAACATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCAGGTGAAGTACGCCAAGCAGCACAAGCTGATCTGATTGCGACATACGGGTGGCAGAAACTTGCCGAAGCCTATGTGGGAGCggg                                                                                                                                                 >  6:284067/1‑149 (MQ=255)    gACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCAt                                                                                                                                              >  2:103877/1‑149 (MQ=255)                ccACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACgg                                                                                                                                  <  6:79968/149‑1 (MQ=255)                 cacaAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACggg                                                                                                                                 <  1:103877/149‑1 (MQ=255)                  acaAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGggc                                                                                                                                >  8:73881/1‑149 (MQ=255)                    aaGGGACGCGTGATGCAGAAGTTGAAAGTGAACTGGCTGGCGGAGCTGTGGAAGTACGCCATTGAGCACAAGCTGATCTGATTGAGACATACGGGTGCGCGAAACTTGCCGTAGGCTATGTGGGAGCGGGCATGCCCGCGAACGggc‑ct                                                                                                                             <  8:332760/149‑1 (MQ=255)                      ggCACGCCTGATGCAGAAGTTGAAAGTGAANTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGggc‑ctgg                                                                                                                           >  1:38259/1‑149 (MQ=255)                      ggCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGggc‑ctgg                                                                                                                           >  3:292158/1‑149 (MQ=255)                       gCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGggc‑ctggc                                                                                                                          <  6:1068/149‑1 (MQ=255)                         aCGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGggc‑ctggcct                                                                                                                        >  3:23301/1‑149 (MQ=255)                            ccTGATGCAGAAGGTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGC‑CTGGCctgct                                                                                                                     <  2:318145/149‑1 (MQ=255)                                   cAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACgg                                                                                                                                  >  3:376153/1‑130 (MQ=255)                                   cAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACgg                                                                                                                                  <  4:376153/130‑1 (MQ=255)                                      aaGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGC‑CTGGCCTGCTGATCTCTATg                                                                                                           <  4:292158/149‑1 (MQ=255)                                       tgTTGATAGTGTACTCGCTGGCGGAGCTGGTGATGTAAGCCATGGAGCACAAGCTGATCTGATTGCGTCATACGGGTGCCCGAAACTTGCCGATGTCTATGTGGGAGCGGGCATGCGCGCGAACGGGC‑CTGGACTGCTGATCTGTATg                                                                                                           <  4:23301/147‑1 (MQ=255)                                       aGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGC‑CTGGCCTGCTGATCTCTATg                                                                                                           <  2:38259/148‑1 (MQ=255)                                              aGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGC‑CTGGCCTGCTGATCTCTATGGCTGAGcc                                                                                                   <  4:53194/149‑1 (MQ=255)                                                tGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGC‑CTGGCCTGCTGATCTCTATGGCTGAGCCgg                                                                                                 <  2:21386/149‑1 (MQ=255)                                                 gAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGC‑CTGGCCTGCTGATCTCTATGGCTGAGCCGGc                                                                                                >  6:222950/1‑149 (MQ=255)                                                       gCTGGCGGTGCTGGTGACGTTCGCCATGGAGAACAAGCTGATCTGATTGCGACATACGGGTGCCGGAAACTTGCCGAAGCGTATGTGGGAGCGGGCATGCCCGCGAACGGGC‑CTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTc                                                                                          <  5:284067/149‑1 (MQ=255)                                                           gCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGC‑CTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCgg                                                                                      <  5:222950/149‑1 (MQ=255)                                                           gCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGC‑CTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCgg                                                                                      <  7:73881/149‑1 (MQ=255)                                                                    gTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGC‑CTGGCctgct                                                                                                                     >  6:44592/1‑109 (MQ=255)                                                                    gTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGC‑CTGGCctgct                                                                                                                     <  5:44592/109‑1 (MQ=255)                                                                    gTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGC‑CTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTcg                                                                                         <  8:277028/137‑1 (MQ=255)                                                                    gTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGC‑CTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTcg                                                                                         >  7:277028/1‑137 (MQ=255)                                                                      gAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGC‑CTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCt                                                                           >  1:293690/1‑149 (MQ=255)                                                                       aaGTACGCCATGGAGCAGAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCCATGTGGGAGCGGGCATGCCCGCGAACGGGC‑CTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTc                                                                          <  7:378064/149‑1 (MQ=255)                                                                       aaGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGC‑CTGGCCTGCTGATCTCTATGGCTGAGc                                                                                                    >  8:234981/1‑123 (MQ=255)                                                                       aaGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGC‑CTGGCCTGCTGATCTCTATGGCTGAGc                                                                                                    <  7:234981/123‑1 (MQ=255)                                                                                      cacaAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGC‑CTGGCCTGCTGATCTCTATGGCTGAGCCGGc                                                                                                >  8:381866/1‑112 (MQ=255)                                                                                      cacaAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGC‑CTGGCCTGCTGATCTCTATGGCTGAGCCGGc                                                                                                <  7:381866/112‑1 (MQ=255)                                                                                       acaAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATTCCCGCGAACGGGC‑CAGGGCTGCTGATCTATATGGCTGAGGCGGCCTCTTAGCCGGCATTCCCGCTCCCCCAGGGTTggtggt                                                          >  7:40163/1‑149 (MQ=255)                                                                                               atctgatTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGC‑CTTGCCTGCTGATCTCTATTGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCAAAGGTTTCGTGGTTGGCTCg                                                   >  7:208112/1‑148 (MQ=255)                                                                                                         gACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGC‑CTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGc                                                                                >  6:102899/1‑109 (MQ=255)                                                                                                         gACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGC‑CTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGc                                                                                <  5:102899/109‑1 (MQ=255)                                                                                                              aCGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGC‑CTGGCCTGCTGCTCTCTATGGGTGAGCCGGCCTCTTCGCGGGCATGCCCGCGCCCCCAGGTTTAGTGGTTGGCTCGCAAGGGcaatccaatc                                   >  5:397750/1‑149 (MQ=255)                                                                                                                           aCTTGCCGAAGCCTATGTGGGCGCGGGCATGCCCGCGAACGGGC‑CTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTc                                                               <  2:291987/108‑1 (MQ=255)                                                                                                                           aCTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCGGTGGCCTGGTGATCTATATGGCTGAGCCGGCCGCTTCGCGGGCATGCCCGCTCCCACCGGtttg                                                               >  1:291987/1‑108 (MQ=37)                                                                                                                            cTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGC‑CTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTa                     <  2:293690/149‑1 (MQ=255)                                                                                                                                         aTGTGGGAGCGGGCATGCCCGCCAACGGGC‑CTGGCCGGCTGATCTCTATGGCTGAGCCGGCCTCATAGCGGGCAAGCCCGCTACCACACGTTTAGTGGTTGGCTCGCAAGGGCAATACCATCCCGCCCTCCATTTTGGGCGATCCCTa         >  6:388088/1‑148 (MQ=255)                                                                                                                                          tgtgGGTGCGGGCATGCCCGCGAACGGGC‑CGGGCCTGCTGATCTCTATGGCTGCGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCTac        <  6:397750/148‑1 (MQ=255)                                                                                                                                          tgtgGGAGCGGGCATGCCCGCGAACGGGC‑CTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCTac        <  1:62002/148‑1 (MQ=255)                                                                                                                                               gAGCGGGCATGCCCGCGAACGGGC‑CTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCCTCCTTGTAGGGCGATCCCTACAACaaa  >  7:270478/1‑149 (MQ=255)                                                                                                                                                   |                                                                                                                                                  CAAGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCAGGCATGCCCGCGAACGGGC‑CTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCTACAACAAA  >  NC_002947/499057‑499347

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑